Variant report

Variant	rs9398521
Chromosome Location	chr6:119993067-119993068
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:119984260..119986895-chr6:119991023..119994308,3	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1040656	0.87[ASN][1000 genomes]
rs1156148	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1156149	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12197190	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1341496	0.84[ASN][1000 genomes]
rs1417842	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1417844	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1417845	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1884254	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1964836	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2207611	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2357678	0.81[EUR][1000 genomes]
rs4310086	0.86[EUR][1000 genomes]
rs4946435	0.82[EUR][1000 genomes]
rs6569085	0.81[ASN][1000 genomes]
rs6569089	0.81[EUR][1000 genomes]
rs6899335	0.82[ASN][1000 genomes]
rs6916609	0.87[ASN][1000 genomes]
rs767398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7739078	0.81[EUR][1000 genomes]
rs7757918	0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs7763039	0.80[EUR][1000 genomes]
rs9320699	0.81[AFR][1000 genomes]
rs9320700	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9372547	0.81[AFR][1000 genomes]
rs9372550	0.86[EUR][1000 genomes]
rs9372551	0.87[EUR][1000 genomes]
rs9372553	0.85[EUR][1000 genomes]
rs9374815	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374816	0.81[AFR][1000 genomes]
rs9374819	0.81[ASN][1000 genomes]
rs9374827	0.85[EUR][1000 genomes]
rs9385082	0.86[ASN][1000 genomes]
rs9387672	0.81[AFR][1000 genomes]
rs9387673	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9387675	0.81[ASN][1000 genomes]
rs9401163	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9401164	0.85[EUR][1000 genomes]
rs9401171	0.82[ASN][1000 genomes]
rs9481954	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9481958	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9489766	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv1027904	chr6:119709488-120001986	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv533518	chr6:119712186-119998618	ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv3442553	chr6:119742069-120076777	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1027370	chr6:119869409-120056608	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv538431	chr6:119869409-120056608	Weak transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119991800-119994000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr6:119991800-119995000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:119991800-120008000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr6:119992200-119994200	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr6:119992200-119995000	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr6:119992200-119995200	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr6:119992400-119993400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr6:119992600-119993800	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr6:119992800-119993800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr6:119992800-119993800	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr6:119992800-119993800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:119992800-120009600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr6:119993000-119993400	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr6:119993000-119993400	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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